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[175720_at]

Description g10197992 /REP_DB=GenBank Identifier /GB=AF273782.1 /PROTEIN_GB=AAG15131.1 /CHR=X /FEA=Mapped Transcript /DEF=nuclear receptor NHR-40
Cluster 6grp_highest_10_10 > 50      6grp_high1_10_10 > 16      4grp_highest_8_8 > 59      4grp_high_8_8 > 25      6grp_highest_nonorm > 40      6grp_total > 07      4grp_total > 39      6grp_highest_sub > De      6grp_cgc > 24      6grp_high1_sub > De      6grp_cgc_sub > Cu      6grp_total_sub > Decrease      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 564
1 2 3 4 range
A 1008.5
(3)
P 		520.8
(-2.4)
P 		462.4
(-3)
P 		631.6
(-1.1)
P 		546
B 828.1
(3)
P 		524.8
(-2.5)
P 		497.2
(-3)
P 		573.7
(-1.6)
P 		331
C 1007.7
(3)
P 		580.1
(-1.6)
P 		444.7
(-3)
P 		501.8
(-2.4)
P 		563
avr 948.1
(3) 		541.9
(-2.1) 		468.1
(-3) 		569
(-1.7) 		480

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 706
1 2 3 4 5 6 range
A 941.2
(3)
P 		581.1
(-0.9)
P 		535.2
(-1.4)
P 		421.7
(-2.6)
P 		382.4
(-3)
P 		391.9
(-2.9)
P 		559
B 986.9
(3)
P 		694.3
(0.5)
P 		610.5
(-0.2)
P 		475.1
(-1.3)
P 		280.5
(-3)
P 		478.8
(-1.3)
P 		706
C 810.2
(3)
P 		771.9
(2.5)
P 		512
(-0.5)
P 		441
(-1.4)
P 		304.7
(-3)
P 		505.8
(-0.6)
P 		506
avr 912.8
(3) 		682.4
(0.7) 		552.6
(-0.7) 		445.9
(-1.7) 		322.5
(-3) 		458.8
(-1.6) 		590
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 283
1 2 3 4 range
A 367.2
(3)
P 		113.1
(-2.6)
P 		120.9
(-2.4)
P 		92.5
(-3)
P 		275
B 264.1
(3)
P 		129.6
(-2.4)
P 		115.2
(-3)
P 		122.2
(-2.7)
P 		149
C 333.6
(3)
P 		166.8
(-1)
P 		155
(-1.3)
P 		84.6
(-3)
P 		249
avr 321.6
(3) 		136.5
(-2) 		130.4
(-2.2) 		99.8
(-3) 		222

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 255
1 2 3 4 5 6 range
A 173.5
(1.2)
P 		206.7
(3)
P 		116.6
(-1.9)
P 		107
(-2.4)
P 		115.4
(-1.9)
P 		95.4
(-3)
P 		111
B 343.4
(3)
P 		231.1
(0.1)
P 		148.2
(-2.1)
P 		125.8
(-2.7)
P 		114
(-3)
P 		178.5
(-1.3)
P 		229
C 300.3
(3)
P 		235.5
(1.2)
P 		130.3
(-1.8)
P 		88.7
(-3)
P 		98.6
(-2.7)
P 		169.3
(-0.7)
P 		212
avr 272.4
(3) 		224.4
(1.3) 		131.7
(-2.1) 		107.2
(-3) 		109.3
(-2.9) 		147.7
(-1.5) 		165
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 175720_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.20033
Sequence Type Exemplar sequence
Representative Public ID 10197992 NCBI
Target Description g10197992 /REP_DB=GenBank Identifier /GB=AF273782.1 /PROTEIN_GB=AAG15131.1 /CHR=X /FEA=Mapped Transcript /DEF=nuclear receptor NHR-40
Cluster Evidence This cluster is supported by a Mapped Transcript.
Annotation Method Description
Annotation Description This probe set was annotated using the Matching Probes based pipeline to a RefSeq identifier using 1 transcript(s).
Annotation Grade This is a grade A annotation.
Annotation Transcript Cluster (# of Matching Probes) NM_171636(11), NM_001029702(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_171636 NCBI Caenorhabditis elegans Nuclear Hormone Receptor family member (nhr-40) (nhr-40) mRNA, complete cds. 11/11 A 
NM_001029702 NCBI Caenorhabditis elegans Nuclear Hormone Receptor family member (nhr-40) (nhr-40) mRNA, complete cds. 11/11 None
T03G6.2b ENSEMBL cdna:known chromosome:CEL140:X:2593997:2606728:1 gene:T03G6.2 11/11 A 
T03G6.2a ENSEMBL cdna:known chromosome:CEL140:X:2593999:2606725:1 gene:T03G6.2 11/11 A 
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
NM_001029703 2/11 Cross Hyb Matching Probes None
GENEFINDER00000022498 1/11 Cross Hyb Matching Probes None
SNAP00000022491 2/11 Cross Hyb Matching Probes None
T03G6.2c 2/11 Cross Hyb Matching Probes A 
Splice Variants
Entrez Total Refseq Isoforms Total Detected By This Probeset Refseq Probesets
180560 3 2 NM_001029702 175720_at (11)
NM_171636 175720_at (11)
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrX:2593998-2606725(+) 100.0 100.0
Public Domain and Genome References
Ensembl T03G6.2
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAM69089 Nuclear hormone receptor family protein 40, isoform a [Caenorhabditis elegans] ref|NP_741729.1| Nuclear Hormone Receptor family member (nhr-40) [Caenorhabditis elegans] gb|AAG15131.1| nuclear receptor NHR-40 [Caenorhabditis elegans] 0.0
blast AAN39667 Nuclear hormone receptor family protein 40, isoform c [Caenorhabditis elegans] ref|NP_001024874.1| Nuclear Hormone Receptor family member (nhr-40) [Caenorhabditis elegans] sp|Q22127|NHR40_CAEEL Nuclear hormone receptor family member nhr-40 0.0
blast AAM69090 Nuclear hormone receptor family protein 40, isoform b [Caenorhabditis elegans] ref|NP_001024873.1| Nuclear Hormone Receptor family member (nhr-40) [Caenorhabditis elegans] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 1.7E-20
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 5.9E-37
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 1.7E-20
Sequence
Target Sequence 
>C. ELEGANS:175720_AT
aacaattttctccaatctgctgatgatgtcagcaacgttgagtaaaacagcatcattcat
caaacgtgtattcgacttcaatcatatcttcaatcgaaccaatgacttgatagatcagct
cattatcgttggcttgtagatcttccattgttgttctccctccctgttgcaaagtattca
catctcgaaataccgatattctcttacatttccatgtttttaaacaaagatctcaagaaa
attacattggaatagttctcaaatagctgaaataataataatggaattttctagttgaga
cggtttcactgtatgtttctctctcatgtagtcacaaatttttgtccatatgcattttca
tttttcattctggagttccacgtgcttctcattttgtcatcctagtgttttgttttacag
tcctgtttccaaatatctcttttcttccatccagtttgcatgaagaataatacgattggt
attcgggtaagctagagagtctattttttagttcaagcagatttctattgaaaaaagacc
gccccatttatttgttgacttg

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AACAATTTTCTCCAATCTGCTGATG 232 135 1286 Antisense
GATCAGCTCATTATCGTTGGCTTGT 320 421 1398 Antisense
TGTAGATCTTCCATTGTTGTTCTCC 572 559 1420 Antisense
TCCCTCCCTGTTGCAAAGTATTCAC 627 593 1442 Antisense
ATACCGATATTCTCTTACATTTCCA 276 23 1475 Antisense
GACGGTTTCACTGTATGTTTCTCTC 500 377 1584 Antisense
TGTTTCTCTCTCATGTAGTCACAAA 459 561 1599 Antisense
TCATTCTGGAGTTCCACGTGCTTCT 474 619 1650 Antisense
CTTCTCATTTTGTCATCCTAGTGTT 664 219 1670 Antisense
CTTTTCTTCCATCCAGTTTGCATGA 92 223 1724 Antisense
ACCGCCCCATTTATTTGTTGACTTG 89 1 1823 Antisense
Sequence Source GenBank